Upon some testing between a Bee Hive and a Bee Nest, I confirmed that pollinated Bees going back into a Bee Hive after going to a flower did not increase the honey_level attribute at all, while the Bee Nest had it's honey_level increase to 3 in the same amount of time.
This can be reproduced by copying the picture below.
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Thank you for your report!
We're actually already tracking this issue in MC-159395, so I resolved and linked this ticket as a duplicate.
If you would like to add a vote and any extra information to the main ticket it would be appreciated.
If you haven't already, you might like to make use of the search feature in the future to see if the issue has already been reported.